data_2EA1 # _model_server_result.job_id nEzQYhsA1Ymrn59-08GPrg _model_server_result.datetime_utc '2024-10-21 20:57:34' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 2ea1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":250}' # _entry.id 2EA1 # _exptl.entry_id 2EA1 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 628.446 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "GUANYLYL-2',5'-PHOSPHOGUANOSINE" _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 96.37 _cell.angle_gamma 90 _cell.entry_id 2EA1 _cell.length_a 43.2 _cell.length_b 49.87 _cell.length_c 54.52 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2EA1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order disulf ? disulf1 A SG CYS 25 A CYS 25 1_555 A SG CYS 39 A CYS 39 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf2 A SG CYS 80 A CYS 80 1_555 A SG CYS 136 A CYS 136 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf3 A SG CYS 97 A CYS 97 1_555 A SG CYS 124 A CYS 124 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf4 A SG CYS 197 A CYS 197 1_555 A SG CYS 234 A CYS 234 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? # _chem_comp.formula 'C20 H25 N10 O12 P' _chem_comp.formula_weight 628.446 _chem_comp.id GPG _chem_comp.mon_nstd_flag . _chem_comp.name "GUANYLYL-2',5'-PHOSPHOGUANOSINE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag N9A C8A GPG sing 129 n y N9A C4A GPG sing 130 n y N9A C1D GPG sing 131 n n C8A N7A GPG doub 132 n y C8A H8A GPG sing 133 n n N7A C5A GPG sing 134 n y C5A C6A GPG sing 135 n n C5A C4A GPG doub 136 n y C6A O6A GPG doub 137 n n C6A N1A GPG sing 138 n n N1A C2A GPG sing 139 n n N1A H1A GPG sing 140 n n C2A N2A GPG sing 141 n n C2A N3A GPG doub 142 n n N2A H21A GPG sing 143 n n N2A H22A GPG sing 144 n n N3A C4A GPG sing 145 n n O5D C5D GPG sing 146 n n O5D HO5A GPG sing 147 n n C5D C4D GPG sing 148 n n C5D H51A GPG sing 149 n n C5D H52A GPG sing 150 n n C4D O4D GPG sing 151 n n C4D C3D GPG sing 152 n n C4D H4D GPG sing 153 n n O4D C1D GPG sing 154 n n C3D O3D GPG sing 155 n n C3D C2D GPG sing 156 n n C3D H3D GPG sing 157 n n O3D HO3A GPG sing 158 n n C2D O2D GPG sing 159 n n C2D C1D GPG sing 160 n n C2D H2D GPG sing 161 n n O2D P GPG sing 162 n n C1D H1D GPG sing 163 n n P O1P GPG doub 164 n n P O2P GPG sing 165 n n P O5E GPG sing 166 n n O2P HOP2 GPG sing 167 n n O5E C5E GPG sing 168 n n C5E C4E GPG sing 169 n n C5E H51B GPG sing 170 n n C5E H52B GPG sing 171 n n C4E O4E GPG sing 172 n n C4E C3E GPG sing 173 n n C4E H4E GPG sing 174 n n O4E C1E GPG sing 175 n n C3E O3E GPG sing 176 n n C3E C2E GPG sing 177 n n C3E H3E GPG sing 178 n n O3E HO3B GPG sing 179 n n C2E O2E GPG sing 180 n n C2E C1E GPG sing 181 n n C2E H2E GPG sing 182 n n O2E HO2B GPG sing 183 n n C1E N9B GPG sing 184 n n C1E H1E GPG sing 185 n n N9B C8B GPG sing 186 n y N9B C4B GPG sing 187 n y C8B N7B GPG doub 188 n y C8B H8B GPG sing 189 n n N7B C5B GPG sing 190 n y C5B C6B GPG sing 191 n n C5B C4B GPG doub 192 n y C6B O6B GPG doub 193 n n C6B N1B GPG sing 194 n n N1B C2B GPG sing 195 n n N1B H1B GPG sing 196 n n C2B N2B GPG sing 197 n n C2B N3B GPG doub 198 n n N2B H21B GPG sing 199 n n N2B H22B GPG sing 200 n n N3B C4B GPG sing 201 n n # _atom_sites.entry_id 2EA1 _atom_sites.fract_transf_matrix[1][1] 0.023148 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002584 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.020052 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.018456 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 GPG A 1 250 250 GPG GPG . C 3 HOH A 1 251 301 HOH HOH . C 3 HOH A 2 252 302 HOH HOH . C 3 HOH A 3 253 303 HOH HOH . C 3 HOH A 4 254 304 HOH HOH . C 3 HOH A 5 255 305 HOH HOH . C 3 HOH A 6 256 306 HOH HOH . C 3 HOH A 7 257 307 HOH HOH . C 3 HOH A 8 258 308 HOH HOH . C 3 HOH A 9 259 309 HOH HOH . C 3 HOH A 10 260 310 HOH HOH . C 3 HOH A 11 261 311 HOH HOH . C 3 HOH A 12 262 312 HOH HOH . C 3 HOH A 13 263 313 HOH HOH . C 3 HOH A 14 264 314 HOH HOH . C 3 HOH A 15 265 315 HOH HOH . C 3 HOH A 16 266 316 HOH HOH . C 3 HOH A 17 267 317 HOH HOH . C 3 HOH A 18 268 318 HOH HOH . C 3 HOH A 19 269 319 HOH HOH . C 3 HOH A 20 270 320 HOH HOH . C 3 HOH A 21 271 321 HOH HOH . C 3 HOH A 22 272 322 HOH HOH . C 3 HOH A 23 273 323 HOH HOH . C 3 HOH A 24 274 324 HOH HOH . C 3 HOH A 25 275 325 HOH HOH . C 3 HOH A 26 276 326 HOH HOH . C 3 HOH A 27 277 327 HOH HOH . C 3 HOH A 28 278 328 HOH HOH . C 3 HOH A 29 279 329 HOH HOH . C 3 HOH A 30 280 330 HOH HOH . C 3 HOH A 31 281 331 HOH HOH . C 3 HOH A 32 282 332 HOH HOH . C 3 HOH A 33 283 333 HOH HOH . C 3 HOH A 34 284 334 HOH HOH . C 3 HOH A 35 285 335 HOH HOH . C 3 HOH A 36 286 336 HOH HOH . C 3 HOH A 37 287 337 HOH HOH . C 3 HOH A 38 288 338 HOH HOH . C 3 HOH A 39 289 339 HOH HOH . C 3 HOH A 40 290 340 HOH HOH . C 3 HOH A 41 291 341 HOH HOH . C 3 HOH A 42 292 342 HOH HOH . C 3 HOH A 43 293 343 HOH HOH . C 3 HOH A 44 294 344 HOH HOH . C 3 HOH A 45 295 345 HOH HOH . C 3 HOH A 46 296 346 HOH HOH . C 3 HOH A 47 297 347 HOH HOH . C 3 HOH A 48 298 348 HOH HOH . C 3 HOH A 49 299 349 HOH HOH . C 3 HOH A 50 300 350 HOH HOH . C 3 HOH A 51 301 351 HOH HOH . C 3 HOH A 52 302 352 HOH HOH . C 3 HOH A 53 303 353 HOH HOH . C 3 HOH A 54 304 354 HOH HOH . C 3 HOH A 55 305 355 HOH HOH . C 3 HOH A 56 306 356 HOH HOH . C 3 HOH A 57 307 357 HOH HOH . C 3 HOH A 58 308 358 HOH HOH . C 3 HOH A 59 309 359 HOH HOH . C 3 HOH A 60 310 360 HOH HOH . C 3 HOH A 61 311 361 HOH HOH . C 3 HOH A 62 312 362 HOH HOH . C 3 HOH A 63 313 363 HOH HOH . C 3 HOH A 64 314 364 HOH HOH . C 3 HOH A 65 315 365 HOH HOH . C 3 HOH A 66 316 366 HOH HOH . C 3 HOH A 67 317 367 HOH HOH . C 3 HOH A 68 318 368 HOH HOH . C 3 HOH A 69 319 369 HOH HOH . C 3 HOH A 70 320 370 HOH HOH . C 3 HOH A 71 321 371 HOH HOH . C 3 HOH A 72 322 372 HOH HOH . C 3 HOH A 73 323 373 HOH HOH . C 3 HOH A 74 324 374 HOH HOH . C 3 HOH A 75 325 375 HOH HOH . C 3 HOH A 76 326 376 HOH HOH . C 3 HOH A 77 327 377 HOH HOH . C 3 HOH A 78 328 378 HOH HOH . C 3 HOH A 79 329 379 HOH HOH . C 3 HOH A 80 330 380 HOH HOH . C 3 HOH A 81 331 381 HOH HOH . C 3 HOH A 82 332 382 HOH HOH . C 3 HOH A 83 333 383 HOH HOH . C 3 HOH A 84 334 384 HOH HOH . C 3 HOH A 85 335 385 HOH HOH . C 3 HOH A 86 336 386 HOH HOH . C 3 HOH A 87 337 387 HOH HOH . C 3 HOH A 88 338 388 HOH HOH . C 3 HOH A 89 339 389 HOH HOH . C 3 HOH A 90 340 390 HOH HOH . C 3 HOH A 91 341 391 HOH HOH . C 3 HOH A 92 342 392 HOH HOH . C 3 HOH A 93 343 393 HOH HOH . C 3 HOH A 94 344 394 HOH HOH . C 3 HOH A 95 345 395 HOH HOH . C 3 HOH A 96 346 396 HOH HOH . C 3 HOH A 97 347 397 HOH HOH . C 3 HOH A 98 348 398 HOH HOH . C 3 HOH A 99 349 399 HOH HOH . C 3 HOH A 100 350 400 HOH HOH . C 3 HOH A 101 351 401 HOH HOH . C 3 HOH A 102 352 402 HOH HOH . C 3 HOH A 103 353 403 HOH HOH . C 3 HOH A 104 354 404 HOH HOH . C 3 HOH A 105 355 405 HOH HOH . C 3 HOH A 106 356 406 HOH HOH . C 3 HOH A 107 357 407 HOH HOH . C 3 HOH A 108 358 408 HOH HOH . C 3 HOH A 109 359 409 HOH HOH . C 3 HOH A 110 360 410 HOH HOH . C 3 HOH A 111 361 411 HOH HOH . C 3 HOH A 112 362 412 HOH HOH . C 3 HOH A 113 363 413 HOH HOH . C 3 HOH A 114 364 414 HOH HOH . C 3 HOH A 115 365 415 HOH HOH . C 3 HOH A 116 366 416 HOH HOH . C 3 HOH A 117 367 417 HOH HOH . C 3 HOH A 118 368 418 HOH HOH . C 3 HOH A 119 369 419 HOH HOH . C 3 HOH A 120 370 420 HOH HOH . C 3 HOH A 121 371 421 HOH HOH . C 3 HOH A 122 372 422 HOH HOH . C 3 HOH A 123 373 423 HOH HOH . C 3 HOH A 124 374 424 HOH HOH . C 3 HOH A 125 375 425 HOH HOH . C 3 HOH A 126 376 426 HOH HOH . C 3 HOH A 127 377 427 HOH HOH . C 3 HOH A 128 378 428 HOH HOH . C 3 HOH A 129 379 429 HOH HOH . C 3 HOH A 130 380 430 HOH HOH . C 3 HOH A 131 381 431 HOH HOH . C 3 HOH A 132 382 432 HOH HOH . C 3 HOH A 133 383 433 HOH HOH . C 3 HOH A 134 384 434 HOH HOH . C 3 HOH A 135 385 435 HOH HOH . C 3 HOH A 136 386 436 HOH HOH . C 3 HOH A 137 387 437 HOH HOH . C 3 HOH A 138 388 438 HOH HOH . C 3 HOH A 139 389 439 HOH HOH . C 3 HOH A 140 390 440 HOH HOH . C 3 HOH A 141 391 441 HOH HOH . C 3 HOH A 142 392 442 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 N N9A GPG . . . B 2 14.244 13.977 22.147 1 37.47 ? N9A GPG 250 A 1 HETATM 2 C C8A GPG . . . B 2 13.005 14.383 21.744 1 36.43 ? C8A GPG 250 A 1 HETATM 3 N N7A GPG . . . B 2 12.053 14.336 22.732 1 37.7 ? N7A GPG 250 A 1 HETATM 4 C C5A GPG . . . B 2 12.686 13.843 23.815 1 36.34 ? C5A GPG 250 A 1 HETATM 5 C C6A GPG . . . B 2 12.34 13.5 25.22 1 38.33 ? C6A GPG 250 A 1 HETATM 6 O O6A GPG . . . B 2 11.153 13.673 25.63 1 37.51 ? O6A GPG 250 A 1 HETATM 7 N N1A GPG . . . B 2 13.301 13.017 26.039 1 36.43 ? N1A GPG 250 A 1 HETATM 8 C C2A GPG . . . B 2 14.59 12.808 25.649 1 36.2 ? C2A GPG 250 A 1 HETATM 9 N N2A GPG . . . B 2 15.422 12.303 26.583 1 32.33 ? N2A GPG 250 A 1 HETATM 10 N N3A GPG . . . B 2 15.036 13.067 24.383 1 35.78 ? N3A GPG 250 A 1 HETATM 11 C C4A GPG . . . B 2 14.088 13.626 23.432 1 37.37 ? C4A GPG 250 A 1 HETATM 12 O O5D GPG . . . B 2 20.142 13.613 20.957 1 28.48 ? O5D GPG 250 A 1 HETATM 13 C C5D GPG . . . B 2 18.865 13.76 21.603 1 31.97 ? C5D GPG 250 A 1 HETATM 14 C C4D GPG . . . B 2 17.694 13.391 20.678 1 31.72 ? C4D GPG 250 A 1 HETATM 15 O O4D GPG . . . B 2 16.476 13.001 21.377 1 37.19 ? O4D GPG 250 A 1 HETATM 16 C C3D GPG . . . B 2 17.425 14.684 19.993 1 37.15 ? C3D GPG 250 A 1 HETATM 17 O O3D GPG . . . B 2 17.043 14.173 18.702 1 39.85 ? O3D GPG 250 A 1 HETATM 18 C C2D GPG . . . B 2 16.124 15.173 20.563 1 38.12 ? C2D GPG 250 A 1 HETATM 19 O O2D GPG . . . B 2 15.628 16.444 20.009 1 38.24 ? O2D GPG 250 A 1 HETATM 20 C C1D GPG . . . B 2 15.422 13.976 21.204 1 37.06 ? C1D GPG 250 A 1 HETATM 21 P P GPG . . . B 2 16.481 17.7 20.64 1 43.89 ? P GPG 250 A 1 HETATM 22 O O1P GPG . . . B 2 18.002 17.568 20.157 1 44.32 ? O1P GPG 250 A 1 HETATM 23 O O2P GPG . . . B 2 16.382 17.601 22.25 1 46.22 ? O2P GPG 250 A 1 HETATM 24 O O5E GPG . . . B 2 16.032 19.221 20.293 1 35.04 ? O5E GPG 250 A 1 HETATM 25 C C5E GPG . . . B 2 16.471 20.319 21.109 1 32.23 ? C5E GPG 250 A 1 HETATM 26 C C4E GPG . . . B 2 15.274 20.771 21.971 1 32.79 ? C4E GPG 250 A 1 HETATM 27 O O4E GPG . . . B 2 14.136 19.875 22.02 1 32.78 ? O4E GPG 250 A 1 HETATM 28 C C3E GPG . . . B 2 15.452 21.423 23.344 1 32.35 ? C3E GPG 250 A 1 HETATM 29 O O3E GPG . . . B 2 15.688 22.831 23.246 1 37.51 ? O3E GPG 250 A 1 HETATM 30 C C2E GPG . . . B 2 14.222 20.988 24.178 1 33.13 ? C2E GPG 250 A 1 HETATM 31 O O2E GPG . . . B 2 13.311 21.96 24.674 1 28.27 ? O2E GPG 250 A 1 HETATM 32 C C1E GPG . . . B 2 13.411 20.12 23.239 1 31.07 ? C1E GPG 250 A 1 HETATM 33 N N9B GPG . . . B 2 12.501 19.078 23.775 1 30.73 ? N9B GPG 250 A 1 HETATM 34 C C8B GPG . . . B 2 12.737 17.867 24.373 1 31.9 ? C8B GPG 250 A 1 HETATM 35 N N7B GPG . . . B 2 11.537 17.233 24.692 1 33.66 ? N7B GPG 250 A 1 HETATM 36 C C5B GPG . . . B 2 10.512 18.037 24.261 1 29.9 ? C5B GPG 250 A 1 HETATM 37 C C6B GPG . . . B 2 9.025 18.101 24.249 1 31.72 ? C6B GPG 250 A 1 HETATM 38 O O6B GPG . . . B 2 8.355 17.138 24.715 1 32.99 ? O6B GPG 250 A 1 HETATM 39 N N1B GPG . . . B 2 8.385 19.181 23.701 1 32.07 ? N1B GPG 250 A 1 HETATM 40 C C2B GPG . . . B 2 9.011 20.258 23.167 1 32.09 ? C2B GPG 250 A 1 HETATM 41 N N2B GPG . . . B 2 8.264 21.301 22.708 1 19.87 ? N2B GPG 250 A 1 HETATM 42 N N3B GPG . . . B 2 10.385 20.329 23.161 1 30.04 ? N3B GPG 250 A 1 HETATM 43 C C4B GPG . . . B 2 11.159 19.201 23.683 1 33.63 ? C4B GPG 250 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 245 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 43 #